A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report
generated on 2020-07-31, 11:40
based on data in:
/tmp/tmpbsuve6dm
General Statistics
Showing 234/234 rows and 6/10 columns.| Sample Name | M Reads Mapped | % Aligned | Insert Size | Median Coverage | Bases ≥ 20X | Bases ≥ 30X |
|---|---|---|---|---|---|---|
| LKCGP-P000201-244412-01-06-01-R1 | 120.0X | 98% | 98% | |||
| LKCGP-P000201-244412-01-06-01-R1.H3NTMCCXY-L6 | 938.6 | |||||
| LKCGP-P000201-244412-01-06-01-R1.H3NTMCCXY-L7 | 930.4 | |||||
| LKCGP-P000201-244412-01-06-01-R1.H3NTMCCXY-L8 | 984.1 | |||||
| LKCGP-P000201-244413-01-06-07-G1 | 976.6 | 42.0X | 95% | 89% | ||
| LKCGP-P000601-245664-01-06-01-D1 | 108.0X | 97% | 97% | |||
| LKCGP-P000601-245664-01-06-01-D1.H3LHGCCXY-L3 | 918.9 | |||||
| LKCGP-P000601-245664-01-06-01-D1.H3LHGCCXY-L4 | 895.3 | |||||
| LKCGP-P000601-245664-01-06-01-D1.H3LHGCCXY-L5 | 922.8 | |||||
| LKCGP-P000601-245666-02-06-07-G1 | 920.6 | 38.0X | 96% | 86% | ||
| LKCGP-P000803-262693-01-02-09-G2 | 934.8 | 34.0X | 96% | 77% | ||
| LKCGP-P000803-283756-01-02-03-R2 | 103.0X | 98% | 98% | |||
| LKCGP-P000803-283756-01-02-03-R2.HYNGWCCXY-L3 | 914.8 | |||||
| LKCGP-P000803-283756-01-02-03-R2.HYNGWCCXY-L4 | 939.0 | |||||
| LKCGP-P000803-283756-01-02-03-R2.HYNGWCCXY-L5 | 924.3 | |||||
| LKCGP-P000803-285371-01-02-03-G3 | 776.0 | 28.0X | 77% | 46% | ||
| LKCGP-P000806-246359-02-04-07-G1 | 963.2 | 40.0X | 97% | 90% | ||
| LKCGP-P000806-246360-01-04-01-D1 | 105.0X | 98% | 97% | |||
| LKCGP-P000806-246360-01-04-01-D1.H7JMJCCXY-L3 | 951.8 | |||||
| LKCGP-P000806-246360-01-04-01-D1.H7JMJCCXY-L4 | 956.2 | |||||
| LKCGP-P000806-246360-01-04-01-D1.H7JMJCCXY-L5 | 948.4 | |||||
| LKCGP-P000808-277069-01-02-01-G2 | 900.7 | 36.0X | 96% | 83% | ||
| LKCGP-P000808-277070-01-02-03-R2 | 108.0X | 98% | 97% | |||
| LKCGP-P000808-277070-01-02-03-R2.HYGLNCCXY-L5 | 925.7 | |||||
| LKCGP-P000808-277070-01-02-03-R2.HYGLNCCXY-L6 | 914.9 | |||||
| LKCGP-P000808-277070-01-02-03-R2.HYGLNCCXY-L7 | 907.3 | |||||
| LKCGP-P000808-279684-01-02-08-G3 | 939.8 | 37.0X | 94% | 81% | ||
| LKCGP-P001103-270604-01-02-03-R1 | 104.0X | 98% | 98% | |||
| LKCGP-P001103-271125-01-02-01-G2 | 36.0X | 96% | 84% | |||
| LKCGP-P001502-259175-02-01-07-G1 | 928.0 | 38.0X | 94% | 84% | ||
| LKCGP-P001502-260042-01-01-01-R1 | 103.0X | 98% | 98% | |||
| LKCGP-P001502-260042-01-01-01-R1.HH355CCXY-L4 | 939.1 | |||||
| LKCGP-P001502-260042-01-01-01-R1.HH355CCXY-L5 | 886.6 | |||||
| LKCGP-P001502-260042-01-01-01-R1.HH355CCXY-L6 | 863.1 | |||||
| LKCGP-P001805-283771-01-01-01-D1 | 111.0X | 98% | 98% | |||
| LKCGP-P001805-283771-01-01-01-D1.H2VYCCCX2-L5 | 899.2 | |||||
| LKCGP-P001805-283771-01-01-01-D1.H2VYCCCX2-L6 | 955.2 | |||||
| LKCGP-P001805-283771-01-01-01-D1.H2VYCCCX2-L7 | 881.9 | |||||
| LKCGP-P001805-283773-02-01-07-G1 | 934.7 | 37.0X | 94% | 82% | ||
| LKCGP-P001905-285206-01-02-05-R1 | 113.0X | 98% | 98% | |||
| LKCGP-P001905-285206-01-02-05-R1.HYNH2CCXY-L4 | 951.7 | |||||
| LKCGP-P001905-285206-01-02-05-R1.HYNH2CCXY-L6 | 962.5 | |||||
| LKCGP-P001905-285206-01-02-05-R1.HYNH2CCXY-L7 | 953.2 | |||||
| LKCGP-P001905-285611-01-02-03-G1 | 926.5 | 36.0X | 93% | 79% | ||
| LKCGP-P002006-260310-01-02-01-G2 | 747.9 | 30.0X | 89% | 54% | ||
| LKCGP-P002006-260311-01-02-05-R1 | 97.0X | 98% | 98% | |||
| LKCGP-P002006-260311-01-02-05-R1.HL2G5CCXY-L4 | 813.6 | |||||
| LKCGP-P002006-260311-01-02-05-R1.HL2GNCCXY-L5 | 869.9 | |||||
| LKCGP-P002006-260311-01-02-05-R1.HL2N2CCXY-L7 | 753.2 | |||||
| LKCGP-P002102-262924-01-04-01-D1 | 105.0X | 98% | 97% | |||
| LKCGP-P002102-262924-01-04-01-D1.HL225CCXY-L2 | 861.9 | |||||
| LKCGP-P002102-262924-01-04-01-D1.HL225CCXY-L3 | 880.1 | |||||
| LKCGP-P002102-262924-01-04-01-D1.HL225CCXY-L4 | 864.6 | |||||
| LKCGP-P002102-262981-02-04-07-G1 | 846.1 | 34.0X | 96% | 74% | ||
| LKCGP-P002207-283109-01-03-01-R1 | 101.0X | 98% | 97% | |||
| LKCGP-P002207-283109-01-03-01-R1.H2VY3CCX2-L3 | 894.3 | |||||
| LKCGP-P002207-283109-01-03-01-R1.H2VY3CCX2-L4 | 953.4 | |||||
| LKCGP-P002207-283109-01-03-01-R1.H2VY3CCX2-L5 | 892.5 | |||||
| LKCGP-P002207-284471-02-03-07-G1 | 901.4 | 35.0X | 96% | 79% | ||
| LKCGP-P002301-257587-01-04-01-D1 | 95.0X | 98% | 98% | |||
| LKCGP-P002301-257587-01-04-01-D1.HH57HCCXY-L5 | 814.4 | |||||
| LKCGP-P002301-257587-01-04-01-D1.HH57HCCXY-L6 | 783.9 | |||||
| LKCGP-P002301-257587-01-04-01-D1.HH57HCCXY-L7 | 751.7 | |||||
| LKCGP-P002301-257608-02-04-07-G1 | 757.3 | 30.0X | 89% | 54% | ||
| LKCGP-P002307-284734-02-03-07-G1 | 1005.5 | 38.0X | 97% | 88% | ||
| LKCGP-P002307-284737-01-03-01-R1 | 105.0X | 98% | 97% | |||
| LKCGP-P002307-284737-01-03-01-R1.H3G7MCCX2-L1 | 990.6 | |||||
| LKCGP-P002307-284737-01-03-01-R1.H3G7MCCX2-L2 | 983.4 | |||||
| LKCGP-P002307-284737-01-03-01-R1.H3G7MCCX2-L7 | 989.7 | |||||
| LKCGP-P002601-237394-01-04-07-G1 | 976.3 | 40.0X | 96% | 89% | ||
| LKCGP-P002601-260323-01-04-01-P2 | 89.0X | 97% | 97% | |||
| LKCGP-P002601-260323-01-04-01-P2.HH3HWCCXY-L3 | 733.4 | |||||
| LKCGP-P002601-260323-01-04-01-P2.HH3HWCCXY-L4 | 760.5 | |||||
| LKCGP-P002601-260323-01-04-01-P2.HH3HWCCXY-L5 | 729.4 | |||||
| LKCGP-P002704-273227-02-04-07-G1 | 934.6 | 37.0X | 96% | 85% | ||
| LKCGP-P002704-273230-01-04-01-R2 | 111.0X | 98% | 97% | |||
| LKCGP-P002704-273230-01-04-01-R2.HVY32CCXY-L6 | 963.2 | |||||
| LKCGP-P002704-273230-01-04-01-R2.HVY32CCXY-L7 | 934.7 | |||||
| LKCGP-P002704-273230-01-04-01-R2.HVY32CCXY-L8 | 958.4 | |||||
| LKCGP-P002805-297243-01-01-01-R1 | 102.0X | 98% | 98% | |||
| LKCGP-P002805-297243-01-01-01-R1.H5J2YCCX2-L6 | 1016.1 | |||||
| LKCGP-P002805-297243-01-01-01-R1.H5J2YCCX2-L7 | 968.9 | |||||
| LKCGP-P002805-297243-01-01-01-R1.H5J2YCCX2-L8 | 968.8 | |||||
| LKCGP-P002805-297245-02-01-07-G1 | 999.4 | 36.0X | 93% | 80% | ||
| LKCGP-P002902-272974-01-02-03-G2 | 879.7 | 34.0X | 93% | 74% | ||
| LKCGP-P002902-272975-01-02-03-G3 | 859.4 | 33.0X | 95% | 71% | ||
| LKCGP-P002902-273015-01-02-03-P1 | 103.0X | 98% | 98% | |||
| LKCGP-P002902-273015-01-02-03-P1.HYGT7CCXY-L1 | 861.6 | |||||
| LKCGP-P002902-273015-01-02-03-P1.HYGT7CCXY-L2 | 913.7 | |||||
| LKCGP-P002902-273015-01-02-03-P1.HYGT7CCXY-L3 | 856.9 | |||||
| LKCGP-P003001-262014-02-03-07-G1 | 775.9 | 31.0X | 91% | 61% | ||
| LKCGP-P003001-262058-01-03-01-P1 | 86.0X | 98% | 97% | |||
| LKCGP-P003001-262058-01-03-01-P1.HLL53CCXY-L5 | 730.3 | |||||
| LKCGP-P003001-262058-01-03-01-P1.HN7G7CCXY-L1 | 759.6 | |||||
| LKCGP-P003001-262058-01-03-01-P1.HN7G7CCXY-L2 | 772.2 | |||||
| LKCGP-P003307-294721-01-02-05-D1 | 121.0X | 98% | 97% | |||
| LKCGP-P003307-294721-01-02-05-D1.H5JLHCCX2-L2 | 1006.3 | |||||
| LKCGP-P003307-294721-01-02-05-D1.H5JLHCCX2-L3 | 1007.1 | |||||
| LKCGP-P003307-294721-01-02-05-D1.H5JLHCCX2-L4 | 1021.0 | |||||
| LKCGP-P003307-297693-01-02-12-G1 | 994.4 | 39.0X | 95% | 86% | ||
| LKCGP-P003506-274439-01-02-05-G2 | 920.9 | 36.0X | 96% | 83% | ||
| LKCGP-P003506-274440-01-02-05-G3 | 952.9 | 36.0X | 94% | 80% | ||
| LKCGP-P003506-274441-01-02-05-R1 | 109.0X | 98% | 97% | |||
| LKCGP-P003506-274441-01-02-05-R1.HVY2TCCXY-L3 | 906.5 | |||||
| LKCGP-P003506-274441-01-02-05-R1.HVY2TCCXY-L4 | 952.2 | |||||
| LKCGP-P003506-274441-01-02-05-R1.HVY2TCCXY-L5 | 939.2 | |||||
| LKCGP-P003607-299930-01-01-01-R1 | 114.0X | 98% | 97% | |||
| LKCGP-P003607-299930-01-01-01-R1.H7CLLCCX2-L3 | 1034.6 | |||||
| LKCGP-P003607-299930-01-01-01-R1.H7CLLCCX2-L6 | 1036.4 | |||||
| LKCGP-P003607-299930-01-01-01-R1.H7CLLCCX2-L7 | 957.2 | |||||
| LKCGP-P003607-299932-02-01-07-G1 | 1017.2 | 38.0X | 97% | 87% | ||
| LKCGP-P003804-277725-01-04-01-R1 | 102.0X | 98% | 98% | |||
| LKCGP-P003804-277725-01-04-01-R1.HYGNLCCXY-L6 | 948.7 | |||||
| LKCGP-P003804-277725-01-04-01-R1.HYGNLCCXY-L7 | 930.1 | |||||
| LKCGP-P003804-277725-01-04-01-R1.HYGNLCCXY-L8 | 961.3 | |||||
| LKCGP-P003804-277728-02-04-07-G1 | 945.4 | 37.0X | 94% | 81% | ||
| LKCGP-P004301-270831-01-01-01-D1 | 107.0X | 98% | 98% | |||
| LKCGP-P004301-270831-01-01-01-D1.HVYJTCCXY-L5 | 925.6 | |||||
| LKCGP-P004301-270831-01-01-01-D1.HVYJTCCXY-L6 | 923.8 | |||||
| LKCGP-P004301-270831-01-01-01-D1.HVYJTCCXY-L7 | 894.7 | |||||
| LKCGP-P004301-270834-02-01-07-G1 | 961.1 | 36.0X | 94% | 81% | ||
| LKCGP-P004801-275422-01-01-09-G1 | 951.0 | 38.0X | 94% | 83% | ||
| LKCGP-P004801-275546-01-01-21-D1 | 101.0X | 98% | 98% | |||
| LKCGP-P004801-275546-01-01-21-D1.HW23TCCXY-L6 | 878.8 | |||||
| LKCGP-P004801-275546-01-01-21-D1.HW23TCCXY-L7 | 934.3 | |||||
| LKCGP-P004801-275546-01-01-21-D1.HW23TCCXY-L8 | 826.0 | |||||
| LKCGP-P005001-275776-01-03-01-R1 | 99.0X | 98% | 97% | |||
| LKCGP-P005001-275776-01-03-01-R1.HVWYTCCXY-L1 | 904.2 | |||||
| LKCGP-P005001-275776-01-03-01-R1.HVWYTCCXY-L2 | 916.3 | |||||
| LKCGP-P005001-275776-01-03-01-R1.HVWYTCCXY-L3 | 918.3 | |||||
| LKCGP-P005001-276091-02-03-07-G1 | 926.6 | 36.0X | 96% | 82% | ||
| LKCGP-P005202-289115-01-04-01-P1 | 105.0X | 98% | 98% | |||
| LKCGP-P005202-289115-01-04-01-P1.H353NCCX2-L2 | 914.0 | |||||
| LKCGP-P005202-289115-01-04-01-P1.H353NCCX2-L4 | 904.7 | |||||
| LKCGP-P005202-289115-01-04-01-P1.H353NCCX2-L7 | 970.8 | |||||
| LKCGP-P005202-289117-02-04-07-G1 | 928.1 | 35.0X | 93% | 76% | ||
| LKCGP-P005304-292439-02-04-07-G1 | 969.9 | 38.0X | 97% | 89% | ||
| LKCGP-P005304-292442-01-04-01-R2 | 111.0X | 98% | 97% | |||
| LKCGP-P005304-292442-01-04-01-R2.H3G5KCCX2-L1 | 962.5 | |||||
| LKCGP-P005304-292442-01-04-01-R2.H3G5KCCX2-L2 | 952.5 | |||||
| LKCGP-P005304-292442-01-04-01-R2.H3G5KCCX2-L8 | 990.1 | |||||
| LKCGP-P005404-294240-02-06-13-P1 | 92.0X | 98% | 97% | |||
| LKCGP-P005404-294240-02-06-13-P1.H5NTWCCX2-L5 | 890.9 | |||||
| LKCGP-P005404-294240-02-06-13-P1.H5NTWCCX2-L6 | 633.8 | |||||
| LKCGP-P005404-294240-02-06-13-P1.H5NTWCCX2-L8 | 950.2 | |||||
| LKCGP-P005404-294497-02-06-07-G1 | 937.1 | 38.0X | 97% | 87% | ||
| LKCGP-P005501-275617-05-02-08-G1 | 907.8 | 35.0X | 93% | 77% | ||
| LKCGP-P005501-278087-01-02-01-D1 | 91.0X | 98% | 98% | |||
| LKCGP-P005501-278087-01-02-01-D1.HYKMGCCXY-L1 | 883.3 | |||||
| LKCGP-P005501-278087-01-02-01-D1.HYKMGCCXY-L2 | 898.7 | |||||
| LKCGP-P005501-278087-01-02-01-D1.HYKMGCCXY-L3 | 910.2 | |||||
| LKCGP-P005602-290690-01-01-01-R1 | 113.0X | 98% | 97% | |||
| LKCGP-P005602-290690-01-01-01-R1.H3G5KCCX2-L3 | 969.3 | |||||
| LKCGP-P005602-290690-01-01-01-R1.H3G5KCCX2-L4 | 975.6 | |||||
| LKCGP-P005602-290690-01-01-01-R1.H3G5KCCX2-L6 | 981.4 | |||||
| LKCGP-P005602-290694-02-01-01-G1 | 983.2 | 38.0X | 97% | 87% | ||
| LKCGP-P005702-291453-02-04-07-G1 | 937.8 | 35.0X | 93% | 78% | ||
| LKCGP-P005702-291574-01-04-01-D1 | 92.0X | 98% | 98% | |||
| LKCGP-P005702-291574-01-04-01-D1.H5HJVCCX2-L2 | 839.8 | |||||
| LKCGP-P005702-291574-01-04-01-D1.H5HJVCCX2-L4 | 909.3 | |||||
| LKCGP-P005702-291574-01-04-01-D1.H5HJVCCX2-L6 | 974.4 | |||||
| LKCGP-P005704-297004-01-04-01-R2 | 105.0X | 98% | 97% | |||
| LKCGP-P005704-297006-02-04-07-G1 | 37.0X | 96% | 85% | |||
| LKCGP-P005801-282911-01-01-01-D1 | 100.0X | 98% | 97% | |||
| LKCGP-P005801-282911-01-01-01-D1.H2VYCCCX2-L1 | 889.1 | |||||
| LKCGP-P005801-282911-01-01-01-D1.H2VYCCCX2-L2 | 779.1 | |||||
| LKCGP-P005801-282911-01-01-01-D1.H2VYCCCX2-L3 | 878.2 | |||||
| LKCGP-P005801-282913-02-01-07-G1 | 962.1 | 37.0X | 96% | 86% | ||
| LKCGP-P005906-307371-01-04-01-D1 | 93.0X | 98% | 97% | |||
| LKCGP-P005906-307371-01-04-01-D1.H7N3CCCX2-L1 | 939.7 | |||||
| LKCGP-P005906-307371-01-04-01-D1.H7N3CCCX2-L2 | 917.9 | |||||
| LKCGP-P005906-307371-01-04-01-D1.H7N3CCCX2-L4 | 934.6 | |||||
| LKCGP-P005906-307590-02-04-07-G1 | 877.2 | 33.0X | 92% | 69% | ||
| LKCGP-P006204-301991-02-06-07-G1 | 1011.7 | 38.0X | 97% | 87% | ||
| LKCGP-P006204-301997-01-06-01-R2 | 115.0X | 98% | 97% | |||
| LKCGP-P006204-301997-01-06-01-R2.H7L5LCCX2-L5 | 1021.1 | |||||
| LKCGP-P006204-301997-01-06-01-R2.H7L5LCCX2-L7 | 1017.0 | |||||
| LKCGP-P006204-301997-01-06-01-R2.H7L5LCCX2-L8 | 1011.9 | |||||
| LKCGP-P006301-287949-01-04-01-P1 | 98.0X | 98% | 98% | |||
| LKCGP-P006301-287949-01-04-01-P1.H3M2GCCX2-L1 | 954.1 | |||||
| LKCGP-P006301-287949-01-04-01-P1.H3M2GCCX2-L2 | 889.9 | |||||
| LKCGP-P006301-287949-01-04-01-P1.H3M2GCCX2-L3 | 957.3 | |||||
| LKCGP-P006301-287951-02-04-07-G1 | 946.1 | 35.0X | 93% | 77% | ||
| LKCGP-P006304-303188-01-01-01-G1 | 882.9 | 35.0X | 95% | 76% | ||
| LKCGP-P006304-303189-01-01-01-D1 | 103.0X | 98% | 97% | |||
| LKCGP-P006304-303189-01-01-01-D1.H7YVYCCX2-L1 | 913.2 | |||||
| LKCGP-P006304-303189-01-01-01-D1.H7YVYCCX2-L4 | 917.5 | |||||
| LKCGP-P006304-303189-01-01-01-D1.H7YVYCCX2-L5 | 920.9 | |||||
| LKCGP-P006404-304450-02-02-07-G1 | 894.7 | 34.0X | 93% | 73% | ||
| LKCGP-P006404-304454-01-02-01-R1 | 100.0X | 98% | 98% | |||
| LKCGP-P006404-304454-01-02-01-R1.H7N77CCX2-L5 | 973.2 | |||||
| LKCGP-P006404-304454-01-02-01-R1.H7N77CCX2-L6 | 969.4 | |||||
| LKCGP-P006404-304454-01-02-01-R1.H7N77CCX2-L8 | 947.1 | |||||
| LKCGP-P006501-288992-01-01-01-D1 | 108.0X | 98% | 98% | |||
| LKCGP-P006501-288992-01-01-01-D1.H33M5CCX2-L6 | 985.5 | |||||
| LKCGP-P006501-288992-01-01-01-D1.H33M5CCX2-L7 | 971.4 | |||||
| LKCGP-P006501-288992-01-01-01-D1.H33M5CCX2-L8 | 937.5 | |||||
| LKCGP-P006501-289018-02-01-07-G1 | 954.3 | 36.0X | 94% | 80% | ||
| LKCGP-P006502-300356-02-03-03-G1 | 931.8 | 37.0X | 94% | 82% | ||
| LKCGP-P006502-300779-01-03-01-P1 | 106.0X | 98% | 98% | |||
| LKCGP-P006502-300779-01-03-01-P1.H7N7YCCX2-L1 | 939.8 | |||||
| LKCGP-P006502-300779-01-03-01-P1.H7N7YCCX2-L5 | 968.8 | |||||
| LKCGP-P006502-300779-01-03-01-P1.H7N7YCCX2-L6 | 971.4 | |||||
| LKCGP-P006904-307586-02-01-07-G1 | 918.8 | 32.0X | 95% | 67% | ||
| LKCGP-P006904-307596-01-01-01-D1 | 103.0X | 98% | 97% | |||
| LKCGP-P006904-307596-01-01-01-D1.H7NF7CCX2-L1 | 936.5 | |||||
| LKCGP-P006904-307596-01-01-01-D1.H7NF7CCX2-L2 | 924.3 | |||||
| LKCGP-P006904-307596-01-01-01-D1.H7NF7CCX2-L4 | 927.4 | |||||
| LKCGP-P007104-309549-01-02-05-G1 | 930.2 | 34.0X | 96% | 75% | ||
| LKCGP-P007104-309550-01-02-05-R1 | 107.0X | 98% | 97% | |||
| LKCGP-P007104-309550-01-02-05-R1.HCHWGCCX2-L6 | 929.5 | |||||
| LKCGP-P007104-309550-01-02-05-R1.HCHWGCCX2-L7 | 932.8 | |||||
| LKCGP-P007104-309550-01-02-05-R1.HCHWGCCX2-L8 | 929.1 | |||||
| LKCP-T000101-030303-01-04-01-D1 | 71.0X | 94% | 91% | |||
| LKCP-T000101-030303-01-04-01-D1.HHGC7CCXX-L1 | 861.0 | |||||
| LKCP-T000101-030303-01-04-01-D1.HHGC7CCXX-L2 | 893.5 | |||||
| LKCP-T000101-030907-01-04-09-G1 | 914.5 | 37.0X | 87% | 73% | ||
| LKCP-T000601-028528-01-01-01-R1 | 75.0X | 91% | 89% | |||
| LKCP-T000601-028528-01-01-01-R1.HHGC7CCXX-L4 | 837.9 | |||||
| LKCP-T000601-028528-01-01-01-R1.HHGC7CCXX-L5 | 902.3 | |||||
| LKCP-T000601-030378-01-01-07-G1 | 962.9 | 42.0X | 88% | 81% | ||
| LKCP-T000801-030437-01-01-01-D1 | 59.0X | 97% | 93% | |||
| LKCP-T000801-030437-01-01-01-D1.HHT5TCCXX-L8 | 693.3 | |||||
| LKCP-T000801-030437-01-01-01-D1.HKJCTCCXX-L8 | 873.8 | |||||
| LKCP-T000801-030448-01-01-09-G1 | 905.3 | 37.0X | 86% | 72% | ||
| LKCP-T000901-030488-01-05-09-G1 | 853.9 | 33.0X | 89% | 68% | ||
| LKCP-T000901-030528-01-05-01-D1 | 58.0X | 94% | 90% | |||
| LKCP-T000901-030528-01-05-01-D1.HKJCTCCXX-L2 | 832.3 | |||||
| LKCP-T000901-030528-01-05-01-D1.HKJCTCCXX-L3 | 843.8 | |||||
| LKCP-T001101-030632-01-06-01-D1 | 69.0X | 95% | 93% | |||
| LKCP-T001101-030632-01-06-01-D1.HK7HLCCXX-L1 | 937.9 | |||||
| LKCP-T001101-030632-01-06-01-D1.HK7HLCCXX-L2 | 929.8 | |||||
| LKCP-T001101-030698-01-06-07-G1 | 809.6 | 28.0X | 82% | 43% | ||
| P000806.D1vsG1 | 99% | 386 bp |
Picard
Picard is a set of Java command line tools for manipulating high-throughput sequencing data.
Alignment Summary
Please note that Picard's read counts are divided by two for paired-end data.
Base Distribution
Plot shows the distribution of bases by cycle.
GC Coverage Bias
This plot shows bias in coverage across regions of the genome with varying GC content. A perfect library would be a flat line at y = 1.
Insert Size
Plot shows the number of reads at a given insert size. Reads with different orientations are summed.
WGS Coverage
The number of bases in the genome territory for each fold coverage. Note that final 1% of data is hidden to prevent very long tails.
WGS Filtered Bases
For more information about the filtered categories, see the Picard documentation.
Samtools
Samtools is a suite of programs for interacting with high-throughput sequencing data.
Samtools Flagstat
This module parses the output from samtools flagstat. All numbers in millions.
XY counts
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Mapped reads per contig
The samtools idxstats tool counts the number of mapped reads per chromosome / contig. Chromosomes with < 0.1% of the total aligned reads are omitted from this plot.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).